genome.fa.s8747.2.7.7.80.10.50.1000.4.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01008747.1 Hibiscus syriacus cultivar Beakdansim tig00111837_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12616935

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   

This is table  4  of  51  ( 6054 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
600347--600408	32	1.9	32	96	0	115	19	17	19	43	1.88
600908--600955	8	5.4	8	79	20	51	0	20	0	79	0.74
600908--600955	18	2.6	19	93	3	80	0	20	0	79	0.74
603710--603793	14	6.2	14	67	18	52	57	4	14	23	1.56
603714--603769	27	2.1	27	93	0	94	62	5	12	19	1.49
603829--603870	7	6.0	7	78	10	50	54	14	16	14	1.71
606209--606249	12	3.5	12	83	3	57	68	2	2	26	1.15
606205--606261	20	2.7	21	73	19	55	68	1	3	26	1.15
606201--606283	41	2.0	41	81	4	96	65	3	2	28	1.22
607644--607694	3	16.7	3	85	4	66	64	1	0	33	1.05
614763--614831	20	3.5	20	91	0	102	36	23	20	20	1.95
614749--614850	40	2.8	34	73	18	89	43	22	17	16	1.88
617005--617232	33	6.8	33	72	15	189	15	22	18	42	1.88
617130--617169	20	2.0	20	90	0	62	12	20	20	47	1.81
619654--619707	24	2.2	24	93	0	90	40	20	18	20	1.91
619654--619721	24	2.8	24	84	0	64	38	20	17	23	1.93
620549--620647	20	4.9	20	85	4	128	23	20	25	31	1.98
620548--620674	40	3.2	40	86	2	157	24	19	23	32	1.98
620602--620674	20	3.7	20	75	14	78	23	20	20	35	1.96
620671--620716	21	2.2	21	92	0	74	39	17	26	17	1.91
621024--621204	20	9.4	20	79	8	178	43	23	16	17	1.88
621024--621237	40	5.7	40	75	12	186	43	23	16	15	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
621064--621237	73	2.4	73	93	0	285	42	23	17	16	1.88
621574--621639	22	3.0	22	86	0	96	21	13	39	25	1.90
621846--621888	21	2.0	21	90	0	68	41	16	23	18	1.89
622682--623155	112	4.2	113	89	2	706	33	11	12	42	1.78
622682--623155	225	2.1	225	90	2	756	33	11	12	42	1.78
623412--623461	23	2.2	23	92	0	82	32	18	12	38	1.87
623394--623602	87	2.4	87	88	1	312	34	14	8	42	1.76
623919--624516	112	5.3	112	90	2	925	32	11	12	42	1.79
623919--624516	223	2.7	224	92	2	970	32	11	12	42	1.79
624760--624820	23	2.7	23	94	0	113	29	21	14	34	1.93
624860--624910	23	2.2	23	85	0	66	33	17	9	39	1.83
624947--624997	23	2.2	23	85	0	66	35	19	7	37	1.81
624783--625010	87	2.6	87	93	0	393	31	13	13	42	1.83
627823--627886	2	32.0	2	93	6	112	48	0	1	50	1.10
637098--637153	24	2.3	24	100	0	112	28	17	16	37	1.91
638783--638858	39	2.0	38	85	10	102	32	13	3	50	1.60
638970--639012	18	2.4	18	80	0	50	34	2	2	60	1.22
639233--639263	6	5.2	6	100	0	62	51	0	0	48	1.00
639239--639305	22	2.9	24	75	20	63	55	0	1	43	1.09
639330--639399	30	2.3	33	78	16	87	57	0	8	34	1.29
639908--640325	183	2.3	182	87	1	586	43	13	15	27	1.85
640162--640487	162	2.0	162	93	0	562	40	11	16	30	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
641876--641907	16	2.0	16	93	0	55	28	25	21	25	1.99
643584--643613	2	15.0	2	92	0	51	46	0	0	53	1.00
644936--644960	3	8.3	3	100	0	50	64	0	0	36	0.94
645276--645715	45	9.7	45	94	0	763	34	18	23	23	1.96
646474--646572	22	4.5	22	84	0	135	39	12	13	35	1.81
647927--648154	74	3.1	73	76	5	206	29	20	13	36	1.91
650201--650344	72	2.0	72	93	0	243	36	17	20	26	1.94
656885--656925	3	13.3	3	89	5	64	60	0	0	39	0.96
656883--656920	19	2.0	19	100	0	76	57	0	0	42	0.98
657268--657304	20	1.9	20	88	5	58	40	5	10	43	1.63
657216--658761	200	7.7	200	88	1	1922	39	13	15	32	1.86
661105--661159	13	4.2	13	75	13	58	34	3	12	49	1.59
661351--661406	21	2.7	21	88	2	87	19	26	25	28	1.99
661700--661731	16	2.0	17	88	11	50	43	21	21	12	1.86
661935--661982	23	2.1	23	84	0	60	41	14	4	39	1.65
661935--662096	87	1.9	87	92	0	270	35	13	8	41	1.75
662008--662060	23	2.3	23	83	0	70	37	16	5	39	1.73
662285--662368	42	2.0	42	97	0	159	32	17	28	21	1.96
665804--666062	137	1.9	137	91	0	428	32	20	12	33	1.91
669844--669910	21	3.2	20	80	4	71	28	13	25	32	1.93
679710--679842	64	2.1	64	95	0	239	45	14	16	23	1.84
689110--689140	15	2.1	15	93	0	53	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
690304--690342	15	2.6	15	100	0	78	10	33	12	43	1.77
691378--691422	20	2.2	20	100	0	90	24	20	22	33	1.97
691459--691614	47	3.2	48	81	6	136	30	23	11	34	1.90
691399--691614	49	4.3	50	77	6	197	30	22	13	33	1.93
692783--692838	25	2.2	25	96	0	103	41	23	10	25	1.86
694650--694715	24	2.8	23	84	6	78	34	28	15	21	1.93
698384--698568	47	3.9	47	78	8	212	31	22	13	31	1.93
698374--698585	96	2.2	96	89	4	313	30	21	14	33	1.93
702546--702636	35	2.6	35	83	1	119	26	20	18	34	1.96
707590--707671	35	2.3	35	87	0	110	30	18	14	36	1.91
708090--708121	16	1.9	17	93	6	57	50	3	6	40	1.43
709203--709284	42	2.0	40	85	4	110	42	2	1	53	1.21
709187--709315	35	3.7	36	72	16	101	45	3	0	50	1.22
709342--709373	15	2.2	15	94	5	57	56	6	3	34	1.40
712193--712231	17	2.2	17	86	4	51	20	7	2	69	1.26
712451--712502	20	2.6	20	80	19	72	15	3	3	76	1.07
718811--718841	16	1.9	16	93	0	53	48	16	0	35	1.46
722179--722451	57	4.9	55	76	11	216	32	10	17	39	1.84
722194--722392	109	1.8	109	83	6	269	29	11	18	41	1.85
722700--722811	38	2.9	38	90	0	179	34	18	15	31	1.92
722878--722960	41	2.0	41	83	2	103	27	19	20	32	1.97
723336--723411	38	2.0	38	97	0	143	34	17	15	32	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
723470--723564	41	2.3	41	78	8	102	27	22	18	31	1.97
723445--723564	42	2.9	41	74	8	107	28	22	19	30	1.98
723621--723734	59	1.9	59	85	1	158	28	26	17	27	1.98
723713--723949	91	2.6	91	83	7	259	32	23	17	26	1.96
725538--725574	10	3.3	12	82	17	53	13	8	0	78	0.96
725549--725580	10	3.3	10	95	4	57	18	6	0	75	1.01
729563--729630	35	1.9	35	81	0	82	32	22	13	32	1.92
734599--734640	17	2.5	17	88	3	59	30	16	19	33	1.94
738159--738203	20	2.2	20	92	4	72	35	26	15	22	1.94
747249--747418	45	3.8	45	95	2	290	30	22	7	40	1.80
747522--747680	40	4.0	40	88	0	246	33	25	16	23	1.96
752699--752742	22	2.0	22	90	0	70	36	15	18	29	1.92
758833--758874	22	1.9	22	85	9	59	61	0	26	11	1.30
761964--762130	83	2.0	83	98	0	325	29	16	14	38	1.89
773429--773468	21	1.9	20	89	5	53	40	12	7	40	1.71
775488--775549	31	2.0	31	96	0	115	35	33	3	27	1.73
781042--781081	20	2.0	20	85	5	53	25	17	25	32	1.97
794261--794295	13	2.6	13	95	4	61	25	8	25	40	1.84
794903--794938	13	2.8	13	100	0	72	36	22	8	33	1.84
794917--795116	85	2.4	85	87	1	285	31	20	15	33	1.93
794917--795167	85	3.0	84	81	6	267	32	20	15	30	1.94
798027--798055	14	2.0	15	93	6	51	34	17	6	41	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
800904--800955	20	2.6	20	96	0	95	28	26	15	28	1.96
806859--806886	12	2.3	12	100	0	56	60	0	14	25	1.34
812850--812985	60	2.2	61	85	1	193	49	6	2	41	1.44
812880--813018	60	2.3	60	83	2	163	46	7	2	43	1.46
814152--814195	21	2.1	21	100	0	88	9	18	18	54	1.69
816305--816353	24	2.0	24	96	0	89	4	20	28	46	1.68
820217--820256	19	2.1	19	85	0	53	32	22	2	42	1.67
820658--820709	27	1.9	27	81	14	63	48	19	15	17	1.82
820704--820746	5	8.6	5	100	0	86	37	41	20	0	1.53
821127--821214	41	2.1	42	87	6	135	27	13	19	39	1.89

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51